A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
Report
generated on 2024-10-28, 23:25 KST
based on data in:
/home/jiehoonk/repo/demo/out
General Statistics
| Sample Name | Insert Size | Mean Insert Size |
|---|---|---|
| Blood_bqsr | 208bp | 227bp |
| Svz_bqsr | 174bp | 179bp |
| Tumor_bqsr | 171bp | 176bp |
GATK
Wide variety of tools with a primary focus on variant discovery and genotyping.URL: https://www.broadinstitute.org/gatkDOI: 10.1101/201178; 10.1002/0471250953.bi1110s43; 10.1038/ng.806; 10.1101/gr.107524.110
Observed Quality Scores
This plot shows the distribution of base quality scores in each sample before and after base quality score recalibration (BQSR). Applying BQSR should broaden the distribution of base quality scores.
For more information see the Broad's description of BQSR.
Reported Quality vs. Empirical Quality
Plot shows the reported quality score vs the empirical quality score.
Picard
Tools for manipulating high-throughput sequencing data.URL: http://broadinstitute.github.io/picard
Alignment Summary
Please note that Picard's read counts are divided by two for paired-end data. Total bases (including unaligned) is not provided.
Mean read length
The mean read length of the set of reads examined.
Insert Size
Plot shows the number of reads at a given insert size. Reads with different orientations are summed.
